YIF1A (Yip1 interacting factor homolog A, membrane trafficking protein) - Rat Genome Database

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Gene: YIF1A (Yip1 interacting factor homolog A, membrane trafficking protein) Sus scrofa
Analyze
Symbol: YIF1A
Name: Yip1 interacting factor homolog A, membrane trafficking protein
RGD ID: 13957064
Description: INVOLVED IN endoplasmic reticulum to Golgi vesicle-mediated transport (inferred); protein transport (inferred); ASSOCIATED WITH Aicardi-Goutieres Syndrome 3 (ortholog); autosomal recessive cutis laxa type IB (ortholog); Bardet-Biedl syndrome (ortholog); FOUND IN COPII-coated ER to Golgi transport vesicle (inferred); endoplasmic reticulum (inferred); endoplasmic reticulum membrane (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein YIF1A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl26,095,877 - 6,102,037 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.126,097,749 - 6,101,965 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.225,171,892 - 5,178,242 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
YIF1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl26,095,877 - 6,102,037 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.126,097,749 - 6,101,965 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.225,171,892 - 5,178,242 (+)NCBISscrofa10.2Sscrofa10.2susScr3
YIF1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381166,284,580 - 66,289,143 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1166,284,580 - 66,289,145 (-)EnsemblGRCh38hg38GRCh38
GRCh371166,052,051 - 66,056,614 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361165,808,627 - 65,813,148 (-)NCBINCBI36Build 36hg18NCBI36
Build 341165,808,627 - 65,813,148NCBI
Celera1163,371,864 - 63,376,451 (-)NCBICelera
Cytogenetic Map11q13.2NCBI
HuRef1162,377,227 - 62,381,814 (-)NCBIHuRef
CHM1_11165,936,159 - 65,940,746 (-)NCBICHM1_1
T2T-CHM13v2.01166,278,243 - 66,282,806 (-)NCBIT2T-CHM13v2.0
Yif1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39195,138,566 - 5,142,907 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl195,138,566 - 5,142,909 (+)EnsemblGRCm39 Ensembl
GRCm38195,088,538 - 5,092,879 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl195,088,538 - 5,092,881 (+)EnsemblGRCm38mm10GRCm38
MGSCv37195,088,553 - 5,092,856 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,088,553 - 5,092,856 (+)NCBIMGSCv36mm8
Celera194,957,751 - 4,962,054 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.24NCBI
Yif1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81211,823,921 - 211,828,437 (+)NCBIGRCr8
mRatBN7.21202,394,923 - 202,399,125 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1202,394,897 - 202,399,427 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1210,748,059 - 210,752,120 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,840,443 - 217,844,504 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01210,531,477 - 210,535,538 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01220,470,070 - 220,474,131 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1220,470,089 - 220,474,496 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01227,401,124 - 227,405,185 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41207,711,277 - 207,715,338 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11207,864,788 - 207,868,789 (+)NCBI
Celera1199,935,080 - 199,939,141 (+)NCBICelera
Cytogenetic Map1q43NCBI
Yif1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542219,028,291 - 19,032,850 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542219,028,871 - 19,032,850 (+)NCBIChiLan1.0ChiLan1.0
YIF1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2967,518,368 - 67,522,971 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11168,561,237 - 68,568,593 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01161,650,020 - 61,656,674 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11164,975,525 - 64,980,110 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1164,975,525 - 64,980,110 (-)Ensemblpanpan1.1panPan2
YIF1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11851,015,575 - 51,019,909 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1851,015,641 - 51,019,901 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1849,624,232 - 49,628,567 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01852,053,944 - 52,058,270 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1852,053,998 - 52,058,258 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11851,153,945 - 51,158,270 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01850,728,097 - 50,732,432 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01851,518,250 - 51,522,576 (+)NCBIUU_Cfam_GSD_1.0
Yif1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049476,861,711 - 6,868,149 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365993,305,925 - 3,310,836 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365993,305,946 - 3,310,498 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
YIF1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.117,977,690 - 7,982,313 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl17,977,867 - 7,984,211 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038105,259,382 - 105,264,008 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Yif1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476720,079,233 - 20,084,170 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476720,079,394 - 20,084,170 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in YIF1A
116 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 3 3 1 1 4 1
Low 7 4 4 1 19 2 2 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000014158   ⟹   ENSSSCP00000013772
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl26,097,792 - 6,101,958 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000055267   ⟹   ENSSSCP00000036812
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl26,097,794 - 6,102,037 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000068761   ⟹   ENSSSCP00000072492
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl26,095,877 - 6,101,844 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000105578   ⟹   ENSSSCP00000077741
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl26,095,877 - 6,101,962 (+)Ensembl
RefSeq Acc Id: XM_003122500   ⟹   XP_003122548
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,755 - 6,101,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013994064   ⟹   XP_013849518
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,751 - 6,101,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013994065   ⟹   XP_013849519
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,753 - 6,101,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013994066   ⟹   XP_013849520
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,749 - 6,101,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013994068   ⟹   XP_013849522
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,751 - 6,101,965 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013994069   ⟹   XP_013849523
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.126,097,753 - 6,101,965 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_013849520   ⟸   XM_013994066
- Peptide Label: isoform X4
- UniProtKB: A0A8D1HRV5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849518   ⟸   XM_013994064
- Peptide Label: isoform X1
- UniProtKB: A0A8D0NRG8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849522   ⟸   XM_013994068
- Peptide Label: isoform X5
- UniProtKB: A0A8D1HRV5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849519   ⟸   XM_013994065
- Peptide Label: isoform X2
- UniProtKB: A0A8D0NRG8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849523   ⟸   XM_013994069
- Peptide Label: isoform X6
- UniProtKB: F1RU41 (UniProtKB/TrEMBL),   A0A4X1TTT0 (UniProtKB/TrEMBL),   A0A8D1HRV5 (UniProtKB/TrEMBL),   A0A8D1V5Y1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003122548   ⟸   XM_003122500
- Peptide Label: isoform X3
- UniProtKB: A0A286ZZB6 (UniProtKB/TrEMBL),   A0A4X1TTW2 (UniProtKB/TrEMBL),   A0A8D0NRG8 (UniProtKB/TrEMBL),   A0A8D1Y229 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000072492   ⟸   ENSSSCT00000068761
RefSeq Acc Id: ENSSSCP00000036812   ⟸   ENSSSCT00000055267
RefSeq Acc Id: ENSSSCP00000013772   ⟸   ENSSSCT00000014158
RefSeq Acc Id: ENSSSCP00000077741   ⟸   ENSSSCT00000105578


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000012953 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005019964 UniProtKB/TrEMBL
  ENSSSCG00015042428 UniProtKB/TrEMBL
  ENSSSCG00025074121 UniProtKB/TrEMBL
  ENSSSCG00030007326 UniProtKB/TrEMBL
  ENSSSCG00035062037 UniProtKB/TrEMBL
  ENSSSCG00040043400 UniProtKB/TrEMBL
  ENSSSCG00045019600 UniProtKB/TrEMBL
  ENSSSCG00050015851 UniProtKB/TrEMBL
  ENSSSCG00055022124 UniProtKB/TrEMBL
  ENSSSCG00060033222 UniProtKB/TrEMBL
  ENSSSCG00065022816 UniProtKB/TrEMBL
  ENSSSCG00070011429 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014158 ENTREZGENE
  ENSSSCT00000014158.5 UniProtKB/TrEMBL
  ENSSSCT00000055267 ENTREZGENE
  ENSSSCT00000055267.2 UniProtKB/TrEMBL
  ENSSSCT00000068761.2 UniProtKB/TrEMBL
  ENSSSCT00000105578.1 UniProtKB/TrEMBL
  ENSSSCT00005031702.1 UniProtKB/TrEMBL
  ENSSSCT00005031721.1 UniProtKB/TrEMBL
  ENSSSCT00005031768.1 UniProtKB/TrEMBL
  ENSSSCT00015056782.1 UniProtKB/TrEMBL
  ENSSSCT00025102070.1 UniProtKB/TrEMBL
  ENSSSCT00025102137.1 UniProtKB/TrEMBL
  ENSSSCT00025102220.1 UniProtKB/TrEMBL
  ENSSSCT00030009823.1 UniProtKB/TrEMBL
  ENSSSCT00030009835.1 UniProtKB/TrEMBL
  ENSSSCT00035083387.1 UniProtKB/TrEMBL
  ENSSSCT00035083393.1 UniProtKB/TrEMBL
  ENSSSCT00035083399.1 UniProtKB/TrEMBL
  ENSSSCT00035083407.1 UniProtKB/TrEMBL
  ENSSSCT00040058202.1 UniProtKB/TrEMBL
  ENSSSCT00040058286.1 UniProtKB/TrEMBL
  ENSSSCT00040058384.1 UniProtKB/TrEMBL
  ENSSSCT00045033399.1 UniProtKB/TrEMBL
  ENSSSCT00045033491.1 UniProtKB/TrEMBL
  ENSSSCT00045033609.1 UniProtKB/TrEMBL
  ENSSSCT00045033668.1 UniProtKB/TrEMBL
  ENSSSCT00050021501.1 UniProtKB/TrEMBL
  ENSSSCT00050021540.1 UniProtKB/TrEMBL
  ENSSSCT00050021573.1 UniProtKB/TrEMBL
  ENSSSCT00050021598.1 UniProtKB/TrEMBL
  ENSSSCT00055043471.1 UniProtKB/TrEMBL
  ENSSSCT00055043568.1 UniProtKB/TrEMBL
  ENSSSCT00055043643.1 UniProtKB/TrEMBL
  ENSSSCT00060045033.1 UniProtKB/TrEMBL
  ENSSSCT00060045035.1 UniProtKB/TrEMBL
  ENSSSCT00065030371.1 UniProtKB/TrEMBL
  ENSSSCT00065030380.1 UniProtKB/TrEMBL
  ENSSSCT00065030385.1 UniProtKB/TrEMBL
  ENSSSCT00070022399.1 UniProtKB/TrEMBL
  ENSSSCT00070022461.1 UniProtKB/TrEMBL
  ENSSSCT00070022570.1 UniProtKB/TrEMBL
  ENSSSCT00070022676.1 UniProtKB/TrEMBL
  ENSSSCT00070022731.1 UniProtKB/TrEMBL
  ENSSSCT00070022832.1 UniProtKB/TrEMBL
InterPro Yif1_fam UniProtKB/TrEMBL
KEGG Report ssc:100521064 UniProtKB/TrEMBL
NCBI Gene YIF1A ENTREZGENE
PANTHER PROTEIN YIF1A UniProtKB/TrEMBL
  PTHR14083 UniProtKB/TrEMBL
Pfam YIF1 UniProtKB/TrEMBL
UniProt A0A286ZZB6 ENTREZGENE
  A0A4X1TQM7_PIG UniProtKB/TrEMBL
  A0A4X1TTL9_PIG UniProtKB/TrEMBL
  A0A4X1TTT0 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TTV3_PIG UniProtKB/TrEMBL
  A0A4X1TTW2 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TUC6_PIG UniProtKB/TrEMBL
  A0A5G2RKA7_PIG UniProtKB/TrEMBL
  A0A8D0NRG8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0TE36_PIG UniProtKB/TrEMBL
  A0A8D1HRV5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1V5Y1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1Y229 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FEK1_PIG UniProtKB/TrEMBL
  F1RU41 ENTREZGENE
UniProt Secondary A0A286ZZB6 UniProtKB/TrEMBL
  F1RU41 UniProtKB/TrEMBL
VGNC ID VGNC:95025 ENTREZGENE